Rw4G023910

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0000890
Physical Location & Seq
Reverse (-)
49684969 .. 49686708
1740 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G023910.1

Sequence Viewer

Length: 726 bp
ATGCTAAACCTTCACGACAGTTTGCATAACAATACTGGGATTATATGTGCTGGAGGAGCCCTTCGAAATGATAAGGGTGAATGGATGAATGGGTTTTCTGCCAAGTTGGGCAGTGGTCAAGTTGTTGAAGCTGAACTTTGGGGGCTTCTAAAAGGAATGGAAATGGCTTGGCAGCATGGCTGTCAACAATTGAAGATAGAAATGGATTCACTTGTTGCAGTCAAGTTGGTTCTCTCTCCTATTGATCATCTCCATCCTCTTTATAGTATTGTGACAAGTTGTCAAGAGTTTTTGAGTAGGGATTGGAATGTGTCCCTTACCCATGTTTACAGAGAGTGTAATTCAGTGGCTGATTTGTTAGCAAATATTGGGCATGGTTATGCGCCTGGCTGCAGATTCTTTAACTCCCCTCCTGCTGATGTCGTGCCTCTTCTGGAAGCTGATCTATTGGGCTTGTCTAAGCCAAGATTAATTGTGATTTATGTTTTGTCCTTAGCCTTCGGGCATCCCTATTTGAAGGAGATTGCTTCGCTCCTTGAGACCACTGCGTCCACCAAGGAGGTCCGGCGAGTTGTCCTCACCGTTAGGCTGACAATGGCGAAGAGGCGGAAGCTGAGTATTTTTGTGCTCTCGTTTCTCAGTTTTGCCTTTTCACCGGGATCTGATGCTCACACCAAGCTACACAATTATATTGCAAAGAAGATAGGTTGTCCTCCTATCTTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
MATH RVT_3 zf-RVT

Protein Analysis

241

Amino Acids

26.64

Weight (kDa)

8.51

Isoelectric Point (pI)

31.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 9 - 122 5.2e-24 Reverse transcriptase-like
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000890)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42905
fragaria_vesca FvH4_1g15070 FvH4_1g21661 FvH4_1g24182 FvH4_2g15861 FvH4_7g26563
prunus_persica Prupe.1G097800_v2.0.a1 Prupe.1G446500_v2.0.a1 Prupe.4G161900_v2.0.a1 Prupe.5G085900_v2.0.a1 Prupe.6G118100_v2.0.a1 Prupe.6G201000_v2.0.a1 Prupe.7G199700_v2.0.a1
pyrus_communis pycom07g22740 pycom15g37390 pycom420g00480 pycom420g00490
rosa_chinensis RchiOBHm_Chr1g0319821 RchiOBHm_Chr1g0331331 RchiOBHm_Chr2g0144631 RchiOBHm_Chr2g0146161 RchiOBHm_Chr2g0152401 RchiOBHm_Chr3g0484381 RchiOBHm_Chr3g0484471 RchiOBHm_Chr3g0494391 RchiOBHm_Chr4g0411801 RchiOBHm_Chr4g0426191 RchiOBHm_Chr5g0016411 RchiOBHm_Chr5g0074971 RchiOBHm_Chr6g0262791 RchiOBHm_Chr6g0272021 RchiOBHm_Chr7g0181271 RchiOBHm_Chr7g0224511 RchiOBHm_Chr7g0225251
rosa_laevigata RLG00000017287
rosa_multiflora Rmu_co8215414.1_g000001 Rmu_sc0001850.1_g000028 Rmu_sc0002132.1_g000045 Rmu_sc0003623.1_g000032 Rmu_sc0003826.1_g000010 Rmu_sc0004165.1_g000032 Rmu_sc0004805.1_g000052 Rmu_sc0005837.1_g000007 Rmu_sc0011261.1_g000003 Rmu_sc0012066.1_g000001 Rmu_sc0021240.1_g000002 Rmu_sc0028377.1_g000003 Rmu_ssc0000454.1_g000003
rosa_roxburghii Rroxscaffold_177G00434230 Rroxscaffold_180G00433210 Rroxscaffold_1G00050960 Rroxscaffold_2G00112540 Rroxscaffold_7G00172420
rosa_rugosa Rorug02G0446000 Rorug03G0370600 Rorug04G0217600.1 Rorug07G0160200 Rorug07G0292300.1
rosa_samantha Rh3AG161100 Rh5AG403600 Rh5CG315600 Rh5CG315800 Rh6BG408500 Rh7CG313500
rosa_wichuraiana Rw4G023910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 547
AciI CCGC 1 cut(s) 607
AclWI GGATC 1 cut(s) 667
AgsI TTSAA 3 cut(s) 128, 193, 517
AhdI GACNNNNNGTC 1 cut(s) 279
AjnI CCWGG 1 cut(s) 385
AluBI AGCT 4 cut(s) 131, 440, 613, 679
AluI AGCT 4 cut(s) 131, 440, 613, 679
Alw21I GWGCWC 1 cut(s) 630
Alw26I GTCTC 1 cut(s) 533
AlwI GGATC 1 cut(s) 667
AlwNI CAGNNNCTG 1 cut(s) 350
ApeKI GCWGC 2 cut(s) 172, 390
AseI ATTAAT 1 cut(s) 470
AspLEI GCGC 1 cut(s) 385
AspS9I GGNCC 1 cut(s) 562
AsuC2I CCSGG 1 cut(s) 657
AsuHPI GGTGA 3 cut(s) 89, 571, 645
AsuII TTCGAA 1 cut(s) 64
AvaII GGWCC 1 cut(s) 562
BanII GRGCYC 1 cut(s) 61
Bbv12I GWGCWC 1 cut(s) 630
BbvI GCAGC 2 cut(s) 184, 377
BccI CCATC 1 cut(s) 261
BciT130I CCWGG 1 cut(s) 387
BclI TGATCA 1 cut(s) 244
BcnI CCSGG 1 cut(s) 657
BcoDI GTCTC 1 cut(s) 533
BfmI CTRYAG 1 cut(s) 391
BisI GCNGC 2 cut(s) 173, 391
BlsI GCNGC 2 cut(s) 174, 392
Bme1390I CCNGG 2 cut(s) 387, 657
Bme18I GGWCC 1 cut(s) 562
BmeRI GACNNNNNGTC 1 cut(s) 279
BmgT120I GGNCC 1 cut(s) 562
BmiI GGNNCC 1 cut(s) 58
BmrFI CCNGG 2 cut(s) 387, 657
BmrI ACTGGG 1 cut(s) 45
BmsI GCATC 2 cut(s) 514, 655
BmuI ACTGGG 1 cut(s) 45
BplI GAGNNNNNCTC 2 cut(s) 561, 593
BpmI CTGGAG 1 cut(s) 72
Bpu10I CCTNAGC 1 cut(s) 493
Bpu14I TTCGAA 1 cut(s) 64
BpuEI CTTGAG 1 cut(s) 557
BpuMI CCSGG 1 cut(s) 657
BsaI GGTCTC 1 cut(s) 533
BsaJI CCNNGG 1 cut(s) 555
Bse1I ACTGG 1 cut(s) 40
BseBI CCWGG 1 cut(s) 387
BseDI CCNNGG 1 cut(s) 555
BseGI GGATG 3 cut(s) 90, 253, 505
BseMII CTCAG 2 cut(s) 605, 652
BseNI ACTGG 1 cut(s) 40
BseRI GAGGAG 1 cut(s) 69
BseXI GCAGC 2 cut(s) 184, 377
BsiHKAI GWGCWC 1 cut(s) 630
BsiSI CCGG 2 cut(s) 565, 656
BslFI GGGAC 1 cut(s) 298
BsmAI GTCTC 1 cut(s) 533
BsmFI GGGAC 1 cut(s) 298
Bso31I GGTCTC 1 cut(s) 533
Bsp119I TTCGAA 1 cut(s) 64
Bsp1286I GDGCHC 2 cut(s) 61, 630
Bsp143I GATC 3 cut(s) 244, 442, 659
BspACI CCGC 1 cut(s) 607
BspCNI CTCAG 2 cut(s) 606, 651
BspLI GGNNCC 1 cut(s) 58
BspMAI CTGCAG 1 cut(s) 395
BspPI GGATC 1 cut(s) 667
BspT104I TTCGAA 1 cut(s) 64
BspTNI GGTCTC 1 cut(s) 533
BsrI ACTGG 1 cut(s) 40
BssECI CCNNGG 1 cut(s) 555
BssMI GATC 3 cut(s) 244, 442, 659
BssT1I CCWWGG 1 cut(s) 555
Bst2UI CCWGG 1 cut(s) 387
Bst4CI ACNGT 2 cut(s) 20, 583
Bst6I CTCTTC 2 cut(s) 435, 596
BstBI TTCGAA 1 cut(s) 64
BstDEI CTNAG 4 cut(s) 459, 493, 614, 638
BstF5I GGATG 3 cut(s) 90, 253, 505
BstHHI GCGC 1 cut(s) 385
BstKTI GATC 3 cut(s) 247, 445, 662
BstMAI GTCTC 1 cut(s) 533
BstMBI GATC 3 cut(s) 244, 442, 659
BstMWI GCNNNNNNNGC 1 cut(s) 56
BstNI CCWGG 1 cut(s) 387
BstSCI CCNGG 2 cut(s) 385, 655
BstSFI CTRYAG 1 cut(s) 391
BstV1I GCAGC 2 cut(s) 184, 377
BstX2I RGATCY 1 cut(s) 659
BstYI RGATCY 1 cut(s) 659
BtsCI GGATG 3 cut(s) 90, 253, 505
BtsI GCAGTG 2 cut(s) 118, 543
BtsIMutI CAGTG 3 cut(s) 118, 351, 543
CaiI CAGNNNCTG 1 cut(s) 350
CfoI GCGC 1 cut(s) 385
Cfr13I GGNCC 1 cut(s) 562
CseI GACGC 1 cut(s) 537
CviAII CATG 3 cut(s) 176, 323, 374
DdeI CTNAG 4 cut(s) 459, 493, 614, 638
DpnI GATC 3 cut(s) 246, 444, 661
DpnII GATC 3 cut(s) 244, 442, 659
DrdI GACNNNNNNGTC 1 cut(s) 547
DriI GACNNNNNGTC 1 cut(s) 279
DseDI GACNNNNNNGTC 1 cut(s) 547
Eam1104I CTCTTC 2 cut(s) 435, 596
Eam1105I GACNNNNNGTC 1 cut(s) 279
EarI CTCTTC 2 cut(s) 435, 596
EciI GGCGGA 1 cut(s) 622
Eco130I CCWWGG 1 cut(s) 555
Eco24I GRGCYC 1 cut(s) 61
Eco31I GGTCTC 1 cut(s) 533
Eco47I GGWCC 1 cut(s) 562
EcoRII CCWGG 1 cut(s) 385
EcoT14I CCWWGG 1 cut(s) 555
EcoT38I GRGCYC 1 cut(s) 61
ErhI CCWWGG 1 cut(s) 555
FaeI CATG 3 cut(s) 179, 326, 377
FalI AAGNNNNNCTT 2 cut(s) 120, 152
FaqI GGGAC 1 cut(s) 298
FatI CATG 3 cut(s) 175, 322, 373
FbaI TGATCA 1 cut(s) 244
Fnu4HI GCNGC 2 cut(s) 173, 391
FokI GGATG 3 cut(s) 97, 240, 492
FriOI GRGCYC 1 cut(s) 61
Fsp4HI GCNGC 2 cut(s) 173, 391
GlaI GCGC 1 cut(s) 384
GluI GCNGC 2 cut(s) 173, 391
GsuI CTGGAG 1 cut(s) 72
HapII CCGG 2 cut(s) 565, 656
HgaI GACGC 1 cut(s) 537
HhaI GCGC 1 cut(s) 385
Hin1II CATG 3 cut(s) 179, 326, 377
Hin6I GCGC 1 cut(s) 383
HinP1I GCGC 1 cut(s) 383
HincII GTYRAC 1 cut(s) 185
HindII GTYRAC 1 cut(s) 185
HinfI GANTC 2 cut(s) 206, 396
HpaII CCGG 2 cut(s) 565, 656
HphI GGTGA 3 cut(s) 89, 571, 645
Hpy166II GTNNAC 3 cut(s) 185, 328, 552
Hpy188I TCNGA 2 cut(s) 664, 725
Hpy188III TCNNGA 3 cut(s) 14, 284, 434
Hpy8I GTNNAC 3 cut(s) 185, 328, 552
HpyAV CCTTC 4 cut(s) 20, 71, 508, 511
HpyCH4III ACNGT 2 cut(s) 20, 583
HpyCH4V TGCA 4 cut(s) 25, 218, 393, 695
HpyF10VI GCNNNNNNNGC 1 cut(s) 56
HpyF3I CTNAG 4 cut(s) 459, 493, 614, 638
Hsp92II CATG 3 cut(s) 179, 326, 377
HspAI GCGC 1 cut(s) 383
Ksp22I TGATCA 1 cut(s) 244
Kzo9I GATC 3 cut(s) 244, 442, 659
LmnI GCTCC 2 cut(s) 56, 537
LpnPI CCDG 8 cut(s) 21, 36, 372, 399, 419, 426, 578, 669
Lsp1109I GCAGC 2 cut(s) 184, 377
LweI GCATC 2 cut(s) 514, 655
MaeIII GTNAC 1 cut(s) 271
MalI GATC 3 cut(s) 246, 444, 661
MboI GATC 3 cut(s) 244, 442, 659
MboII GAAGA 5 cut(s) 205, 422, 613, 712, 712
MfeI CAATTG 1 cut(s) 188
MflI RGATCY 1 cut(s) 659
MhlI GDGCHC 2 cut(s) 61, 630
MluCI AATT 4 cut(s) 188, 340, 471, 685
MnlI CCTC 8 cut(s) 47, 267, 420, 438, 553, 587, 597, 723
MseI TTAA 2 cut(s) 402, 470
MslI CAYNNNNRTG 1 cut(s) 378
MspI CCGG 2 cut(s) 565, 656
MspR9I CCNGG 2 cut(s) 387, 657
MunI CAATTG 1 cut(s) 188
MvaI CCWGG 1 cut(s) 387
MwoI GCNNNNNNNGC 1 cut(s) 56
NciI CCSGG 1 cut(s) 657
NdeII GATC 3 cut(s) 244, 442, 659
NlaIII CATG 3 cut(s) 179, 326, 377
NlaIV GGNNCC 1 cut(s) 58
NmuCI GTSAC 1 cut(s) 271
NspV TTCGAA 1 cut(s) 64
PfeI GAWTC 2 cut(s) 206, 396
PkrI GCNGC 2 cut(s) 174, 392
PshBI ATTAAT 1 cut(s) 470
Psp6I CCWGG 1 cut(s) 385
PspGI CCWGG 1 cut(s) 385
PspN4I GGNNCC 1 cut(s) 58
PspPI GGNCC 1 cut(s) 562
PstI CTGCAG 1 cut(s) 395
PstNI CAGNNNCTG 1 cut(s) 350
PsuI RGATCY 1 cut(s) 659
RseI CAYNNNNRTG 1 cut(s) 378
SaqAI TTAA 2 cut(s) 402, 470
SatI GCNGC 2 cut(s) 173, 391
Sau3AI GATC 3 cut(s) 244, 442, 659
Sau96I GGNCC 1 cut(s) 562
ScrFI CCNGG 2 cut(s) 387, 657
SduI GDGCHC 2 cut(s) 61, 630
SetI ASST 7 cut(s) 12, 133, 442, 564, 615, 681, 709
SfaNI GCATC 2 cut(s) 514, 655
SfcI CTRYAG 1 cut(s) 391
SfuI TTCGAA 1 cut(s) 64
SinI GGWCC 1 cut(s) 562
SmiMI CAYNNNNRTG 1 cut(s) 378
SmlI CTYRAG 1 cut(s) 536
SmoI CTYRAG 1 cut(s) 536
Sse9I AATT 4 cut(s) 188, 340, 471, 685
SsiI CCGC 1 cut(s) 607
SspI AATATT 1 cut(s) 367
StyD4I CCNGG 2 cut(s) 385, 655
StyI CCWWGG 1 cut(s) 555
TaaI ACNGT 2 cut(s) 20, 583
TaqI TCGA 1 cut(s) 64
TasI AATT 4 cut(s) 188, 340, 471, 685
TfiI GAWTC 2 cut(s) 206, 396
Tru1I TTAA 2 cut(s) 402, 470
Tru9I TTAA 2 cut(s) 402, 470
TscAI CASTG 3 cut(s) 118, 351, 550
TseFI GTSAC 1 cut(s) 271
TseI GCWGC 2 cut(s) 172, 390
Tsp45I GTSAC 1 cut(s) 271
TspDTI ATGAA 1 cut(s) 101
TspRI CASTG 3 cut(s) 118, 351, 550
VpaK11BI GGWCC 1 cut(s) 562
VspI ATTAAT 1 cut(s) 470
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.